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Literature DB >> 25565027

Using synthetic RNAs as scaffolds and regulators.

Abstract

The natural versatility of RNA makes it an ideal substrate for bioengineering. Its structural properties and predictable base-pairing permit its use as molecular scaffold, and its ability to interact with nucleic acids, proteins and small molecules confers a regulatory potential that can be harvested to design RNA regulators in diverse contexts.

Mesh：

Substances：
RNA

Year: 2015 PMID： 25565027 DOI： 10.1038/nsmb.2944

Source DB: PubMed Journal: Nat Struct Mol Biol ISSN： 1545-9985 Impact factor: 15.369

24 in total

1. NUPACK: Analysis and design of nucleic acid systems.

Authors: Joseph N Zadeh; Conrad D Steenberg; Justin S Bois; Brian R Wolfe; Marshall B Pierce; Asif R Khan; Robert M Dirks; Niles A Pierce
Journal: J Comput Chem Date: 2011-01-15 Impact factor: 3.376

2. RNA nanostructures. A single-stranded architecture for cotranscriptional folding of RNA nanostructures.

Authors: Cody Geary; Paul W K Rothemund; Ebbe S Andersen
Journal: Science Date: 2014-08-15 Impact factor: 47.728

3. Genetic control of mammalian T-cell proliferation with synthetic RNA regulatory systems.

Authors: Yvonne Y Chen; Michael C Jensen; Christina D Smolke
Journal: Proc Natl Acad Sci U S A Date: 2010-04-26 Impact factor: 11.205

4. Long noncoding RNA as modular scaffold of histone modification complexes.

Authors: Miao-Chih Tsai; Ohad Manor; Yue Wan; Nima Mosammaparast; Jordon K Wang; Fei Lan; Yang Shi; Eran Segal; Howard Y Chang
Journal: Science Date: 2010-07-08 Impact factor: 47.728

5. Interenzyme substrate diffusion for an enzyme cascade organized on spatially addressable DNA nanostructures.

Authors: Jinglin Fu; Minghui Liu; Yan Liu; Neal W Woodbury; Hao Yan
Journal: J Am Chem Soc Date: 2012-03-16 Impact factor: 15.419

6. Metabolic engineering of Escherichia coli using synthetic small regulatory RNAs.

Authors: Dokyun Na; Seung Min Yoo; Hannah Chung; Hyegwon Park; Jin Hwan Park; Sang Yup Lee
Journal: Nat Biotechnol Date: 2013-01-20 Impact factor: 54.908

7. Yeast telomerase RNA: a flexible scaffold for protein subunits.

Authors: David C Zappulla; Thomas R Cech
Journal: Proc Natl Acad Sci U S A Date: 2004-06-28 Impact factor: 11.205

8. Scalable gene synthesis by selective amplification of DNA pools from high-fidelity microchips.

Authors: Sriram Kosuri; Nikolai Eroshenko; Emily M Leproust; Michael Super; Jeffrey Way; Jin Billy Li; George M Church
Journal: Nat Biotechnol Date: 2010-11-28 Impact factor: 54.908

9. Design principles for ligand-sensing, conformation-switching ribozymes.

Authors: Xi Chen; Andrew D Ellington
Journal: PLoS Comput Biol Date: 2009-12-24 Impact factor: 4.475

10. In vivo co-localization of enzymes on RNA scaffolds increases metabolic production in a geometrically dependent manner.

Authors: Gairik Sachdeva; Abhishek Garg; David Godding; Jeffrey C Way; Pamela A Silver
Journal: Nucleic Acids Res Date: 2014-07-17 Impact factor: 16.971

8 in total

1. Biomedical Applications of RNA-Based Devices.

Authors: Cameron M Kim; Christina D Smolke
Journal: Curr Opin Biomed Eng Date: 2017-10-18

Review 2. Engineered transmembrane pores.

Authors: Mariam Ayub; Hagan Bayley
Journal: Curr Opin Chem Biol Date: 2016-09-20 Impact factor: 8.822

Using synthetic RNAs as scaffolds and regulators.

1. NUPACK: Analysis and design of nucleic acid systems.

2. RNA nanostructures. A single-stranded architecture for cotranscriptional folding of RNA nanostructures.

3. Genetic control of mammalian T-cell proliferation with synthetic RNA regulatory systems.

4. Long noncoding RNA as modular scaffold of histone modification complexes.

5. Interenzyme substrate diffusion for an enzyme cascade organized on spatially addressable DNA nanostructures.

6. Metabolic engineering of Escherichia coli using synthetic small regulatory RNAs.

7. Yeast telomerase RNA: a flexible scaffold for protein subunits.

8. Scalable gene synthesis by selective amplification of DNA pools from high-fidelity microchips.

9. Design principles for ligand-sensing, conformation-switching ribozymes.

10. In vivo co-localization of enzymes on RNA scaffolds increases metabolic production in a geometrically dependent manner.

1. Biomedical Applications of RNA-Based Devices.

Review 2. Engineered transmembrane pores.

3. Engineering the Bacterial Microcompartment Domain for Molecular Scaffolding Applications.

4. Scaling up genetic circuit design for cellular computing: advances and prospects.

5. RNA origami design tools enable cotranscriptional folding of kilobase-sized nanoscaffolds.

6. Length-Dependent Deep Learning Model for RNA Secondary Structure Prediction.

Review 7. Targeted mutagenesis: A sniper-like diversity generator in microbial engineering.

Review 8. Enzyme Assembly for Compartmentalized Metabolic Flux Control.